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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGGCGGAGGAGATCGAGGAGGACATGTACGCCCTGACCGGCGGCCGGCCGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGATgtaagcccaattccccattctacccctcaccccctcctaatctcctaatcaccctcattagagaaaaaaagaaccccatattttattgctctcctcgata...

Basic information

species Oryza sativa
transcript LOC_Os01g49440.1
intron # 1
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58600181|gb|CK010709.1|CK010709
EST:     CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGAT                         TCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCGGCGCCGACGCCTACAAG
genomic: CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGATgtaagcccaa ... tctcgtgcagTCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCACCGCCGACGCCTACAAG
EST: gi|88233588|gb|CI233437.1|CI233437
EST:     CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGAT                         TCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCACCGCCGACGCCTACAAG
genomic: CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGATgtaagcccaa ... tctcgtgcagTCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCACCGCCGACGCCTACAAG
EST: gi|38474055|gb|CF958187.1|CF958187
EST:     CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGAT                         TCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCACCGCCGACGCCTACAAG
genomic: CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGATgtaagcccaa ... tctcgtgcagTCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCACCGCCGACGCCTACAAG
EST: gi|88233657|gb|CI233506.1|CI233506
EST:     CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGAT                         TCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCACCGCCGACGCCTACAAG
genomic: CGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGATgtaagcccaa ... tctcgtgcagTCGCTGTTCCCGGGGCTGTGGCTGACCGAGATCACCGCCGACGCCTACAAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCGGCGGAGGAGATCGAGGAGGACATGTACGCCCTGACCGGCGGCCGGCCGCGGCGGCGGCCTCGGAAACGGCCTCGCGTCGTCCAGCGGCAGCTCGATgtaagcccaattccccattctacccctcaccccctcctaatctcctaatcaccctcattagagaaaaaaagaaccccatattttattgctctcctcgata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcctc